5QSK

PanDDA analysis group deposition -- Crystal Structure of human Brachyury G177D variant in complex with Z2856434906

• PDB DOI: https://doi.org/10.2210/pdb5QSK/pdb
• Deposition Group: G_1002081 (changed state) ExploreG_1002081

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2019-05-25 Released: 2019-08-21 
• Deposition Author(s): Newman, J.A., Gavard, A.E., Sherestha, L., Burgess-Brown, N.A., von Delft, F., Arrowsmith, C.H., Edwards, A., Bountra, C., Gileadi, O.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.213 
• R-Value Work: 0.194 
• R-Value Observed: 0.195 

Literature

PanDDA analysis group deposition

Newman, J.A., Gavard, A.E., Sherestha, L., Burgess-Brown, N.A., von Delft, F., Arrowsmith, C.H., Edwards, A., Bountra, C., Gileadi, O.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 19.82 kDa 
• Atom Count: 1,575 
• Modelled Residue Count: 171 
• Deposited Residue Count: 172 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
T-box transcription factor T	A	172	Homo sapiens	Mutation(s): 1  Gene Names: TBXT, T
UniProt & NIH Common Fund Data Resources
Find proteins for O15178 (Homo sapiens) Explore O15178  Go to UniProtKB:  O15178
PHAROS:  O15178 GTEx:  ENSG00000164458

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
O1J (Subject of Investigation/LOI)	B [auth A]	(benzyloxy)acetic acid C9 H10 O3 GRZHHTYDZVRPIC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.213 
• R-Value Work: 0.194 
• R-Value Observed: 0.195 
• Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.444	α = 90
b = 99.444	β = 90
c = 99.542	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-08-21 
Deposition Author(s): Newman, J.A., Gavard, A.E., Sherestha, L., Burgess-Brown, N.A., von Delft, F., Arrowsmith, C.H., Edwards, A., Bountra, C., Gileadi, O.

Revision History  

• Version 1.0: 2019-08-21
  Type: Initial release
  
• Version 1.1: 2024-03-06
  Changes: Data collection, Database references